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Hello Freesurfer developers,
I’m attempting to run the recon-all pipeline but it exited with ERRORS during synthtrip. I’ve attached the recon-all.log.
1) FreeSurfer version: freesurfer-macOS-darwin_arm64-8.1.0-20250718-f30dfed 2) Platform: macOS Sonoma 14.6.1 3) Command: recon-all -s NVR-1 -sd /Volumes/INTENSO/Projects/NeuroVR+/MRI/recon/NVR-1_recon -i /Volumes/INTENSO/Projects/NeuroVR+/MRI/Nifti/NVR-1_nii/5_t1_tfl3d_sag_ti1090_fa9_tr2700_09mm_p2.nii.gz -T2 /Volumes/INTENSO/Projects/NeuroVR+/MRI/Nifti/NVR-1_nii/6_t2_space_sag_081x081x09mm_p2.nii.gz -T2pial -all Error: \n mri_synthstrip --threads 1 -i /Volumes/INTENSO/Projects/NeuroVR+/MRI/recon/NVR-1_recon/NVR-1/mri/orig.mgz -o /Volumes/INTENSO/Projects/NeuroVR+/MRI/recon/NVR-1_recon/NVR-1/mri/synthstrip.mgz \n
if: Empty if.
then: Command not found.
Configuring model on the CPU
Running SynthStrip model version 1
Input image read from: /Volumes/INTENSO/Projects/NeuroVR+/MRI/recon/NVR-1_recon/NVR-1/mri/orig.mgz
Processing frame (of 1): 1 Killed
4) recon-all.log: see attached
Looking forward to your help Lukas Diedrich
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Dr. rer. nat. Lukas Diedrich Postdoctoral researcher Non-invasive Brain Stimulation (NBS) Lab Department of Neurology University Medical Center Göttingen, Germany
+49 551 39 64838 | lukas.diedrich@med.uni-goettingen.de
[cid:94c3b536-7fb1-4ae8-8dc3-a0d660d38d74@med.uni-goettingen.de]
